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          <td width="10%" class="headerItem">Current view:</td>
          <td width="35%" class="headerValue"><a href="../../../../../../../../index.html">directory</a> - <a href="index.html">home/andres/Programacion/aso_coverage/aso/src/ASO/framework</a> - data_base.cpp (source / <a href="data_base.cpp.func.html">functions</a>)</td>
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          <td width="10%" class="headerCovTableHead">Found</td>
          <td width="10%" class="headerCovTableHead">Hit</td>
          <td width="15%" class="headerCovTableHead">Coverage</td>
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          <td class="headerItem">Test:</td>
          <td class="headerValue">cover.info</td>
          <td class="headerItem">Lines:</td>
          <td class="headerCovTableEntry">47</td>
          <td class="headerCovTableEntry">46</td>
          <td class="headerCovTableEntryHi">97.9 %</td>
        </tr>
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          <td></td>
          <td class="headerItem">Date:</td>
          <td class="headerValue">2010-08-03</td>
          <td class="headerItem">Functions:</td>
          <td class="headerCovTableEntry">9</td>
          <td class="headerCovTableEntry">7</td>
          <td class="headerCovTableEntryMed">77.8 %</td>
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      <td><pre class="source">
<a name="1"><span class="lineNum">       1 </span>                : /**</a>
<span class="lineNum">       2 </span>                :  * \file  data_base.cpp
<span class="lineNum">       3 </span>                :  * \brief implementation of DataBase class.
<span class="lineNum">       4 </span>                :  *
<span class="lineNum">       5 </span>                :  * ASO: Antiviral Sequence Optimizer
<span class="lineNum">       6 </span>                :  * &lt;http://aso.googlecode.com/&gt;
<span class="lineNum">       7 </span>                :  * Copyright (C) 2010 Velez Ezequiel, Peralta Andres, FuDePAN
<span class="lineNum">       8 </span>                :  *
<span class="lineNum">       9 </span>                :  * This file is part of the ASO project.
<span class="lineNum">      10 </span>                :  *
<span class="lineNum">      11 </span>                :  * Contents:       CPP file for ASO providing class DataBase.
<span class="lineNum">      12 </span>                :  *
<span class="lineNum">      13 </span>                :  * System:         ASO
<span class="lineNum">      14 </span>                :  * Language:       C++
<span class="lineNum">      15 </span>                :  *
<span class="lineNum">      16 </span>                :  * Author:         Velez Ezequiel, Peralta Andres
<span class="lineNum">      17 </span>                :  * E-Mail:
<span class="lineNum">      18 </span>                :  *
<span class="lineNum">      19 </span>                :  * ASO is free software: you can redistribute it and/or modify
<span class="lineNum">      20 </span>                :  * it under the terms of the GNU General Public License as published by
<span class="lineNum">      21 </span>                :  * the Free Software Foundation, either version 3 of the License, or
<span class="lineNum">      22 </span>                :  * (at your option) any later version.
<span class="lineNum">      23 </span>                :  *
<span class="lineNum">      24 </span>                :  * ASO is distributed in the hope that it will be useful,
<span class="lineNum">      25 </span>                :  * but WITHOUT ANY WARRANTY; without even the implied warranty of
<span class="lineNum">      26 </span>                :  * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
<span class="lineNum">      27 </span>                :  * GNU General Public License for more details.
<span class="lineNum">      28 </span>                :  *
<span class="lineNum">      29 </span>                :  * You should have received a copy of the GNU General Public License
<span class="lineNum">      30 </span>                :  * along with ASO.  If not, see &lt;http://www.gnu.org/licenses/&gt;.
<span class="lineNum">      31 </span>                :  *
<span class="lineNum">      32 </span>                :  */
<span class="lineNum">      33 </span>                : 
<span class="lineNum">      34 </span>                : #include &lt;fxp.h&gt;
<span class="lineNum">      35 </span>                : #include &quot;data_base.h&quot;
<span class="lineNum">      36 </span>                : 
<a name="37"><span class="lineNum">      37 </span>                : using namespace std;</a>
<span class="lineNum">      38 </span>                : 
<span class="lineNum">      39 </span><span class="lineCov">              1 : void DataBase::load_file(const char* file_name)</span>
<span class="lineNum">      40 </span>                : {
<span class="lineNum">      41 </span><span class="lineCov">              1 :     FXParserLOVMethod&lt;ResisBasedAntiviral, ResisBasedAntiviral&amp;, Parameters2&lt;size_t, const string&amp;&gt; &gt; resistanceParser(&quot;resistance&quot;, &amp;ResisBasedAntiviral::add_resistance);</span>
<span class="lineNum">      42 </span><span class="lineCov">              2 :     resistanceParser.parameters.set_param0(&quot;pos&quot;);</span>
<span class="lineNum">      43 </span><span class="lineCov">              2 :     resistanceParser.parameters.set_param1(&quot;aminos&quot;);</span>
<span class="lineNum">      44 </span>                : 
<span class="lineNum">      45 </span><span class="lineCov">              2 :     FXParserLOVMethod&lt;ResisBasedAntiviral, ResisBasedAntiviral&amp;, Parameters2&lt;const string&amp;, const string&amp;&gt; &gt; addendumParser(&quot;addendum&quot;, &amp;ResisBasedAntiviral::add_attribute);</span>
<span class="lineNum">      46 </span><span class="lineCov">              2 :     addendumParser.parameters.set_param0(&quot;attrib&quot;);</span>
<span class="lineNum">      47 </span><span class="lineCov">              2 :     addendumParser.parameters.set_param1(&quot;value&quot;);</span>
<span class="lineNum">      48 </span>                : 
<span class="lineNum">      49 </span><span class="lineCov">              2 :     FXParserNonDef&lt;ResisBasedAntiviral, Constructor4&lt;ResisBasedAntiviral, string, size_t, AvType, AvClass&gt; &gt; antiviralParser(&quot;antiviral&quot;);</span>
<span class="lineNum">      50 </span><span class="lineCov">              2 :     antiviralParser.constructor.set_param0(&quot;id&quot;);//nombre</span>
<span class="lineNum">      51 </span><span class="lineCov">              2 :     antiviralParser.constructor.set_param1(&quot;num&quot;);//id</span>
<span class="lineNum">      52 </span><span class="lineCov">              2 :     antiviralParser.constructor.set_param2(&quot;type&quot;);//tipo</span>
<span class="lineNum">      53 </span><span class="lineCov">              2 :     antiviralParser.constructor.set_param3(&quot;class&quot;);//clase</span>
<span class="lineNum">      54 </span>                : 
<span class="lineNum">      55 </span><span class="lineCov">              1 :     add_lov_child(antiviralParser, resistanceParser);</span>
<span class="lineNum">      56 </span><span class="lineCov">              1 :     add_lov_child(antiviralParser, addendumParser);</span>
<span class="lineNum">      57 </span>                : 
<span class="lineNum">      58 </span><span class="lineCov">              1 :     FXPRootParserNonDef&lt;Antivirals&gt; antiviralsParser(&quot;antivirals&quot;, antiviralParser);</span>
<span class="lineNum">      59 </span><span class="lineCov">              2 :     cout &lt;&lt; &quot;-- Data base loaded.&quot; &lt;&lt; endl;</span>
<span class="lineNum">      60 </span>                : 
<span class="lineNum">      61 </span><span class="lineCov">              1 :     parse_xml(file_name, antivirals, antiviralsParser, Warn, Warn);</span>
<span class="lineNum">      62 </span>                : 
<a name="63"><span class="lineNum">      63 </span><span class="lineCov">              1 : }</span></a>
<span class="lineNum">      64 </span>                : 
<span class="lineNum">      65 </span><span class="lineCov">              1 : void DataBase::get_antivirals(AntiviralSet&amp; antiviral_set)</span>
<span class="lineNum">      66 </span>                : {
<span class="lineNum">      67 </span><span class="lineCov">             16 :     for (Antivirals::iterator it = antivirals.begin(); it != antivirals.end(); ++it)</span>
<span class="lineNum">      68 </span>                :     {
<span class="lineNum">      69 </span><span class="lineCov">             15 :         antiviral_set.add_antiviral(*it);</span>
<span class="lineNum">      70 </span>                :     }
<a name="71"><span class="lineNum">      71 </span><span class="lineCov">              1 : }</span></a>
<span class="lineNum">      72 </span>                : 
<span class="lineNum">      73 </span><span class="lineCov">              1 : void DataBase::print_database()</span>
<span class="lineNum">      74 </span>                : {
<span class="lineNum">      75 </span><span class="lineCov">              1 :     Antivirals::iterator it = validated_antivirals.begin();</span>
<span class="lineNum">      76 </span><span class="lineCov">             17 :     while (it != validated_antivirals.end())</span>
<span class="lineNum">      77 </span>                :     {
<span class="lineNum">      78 </span><span class="lineCov">             15 :         it-&gt;print_antiviral();</span>
<span class="lineNum">      79 </span><span class="lineCov">             15 :         ++it;</span>
<span class="lineNum">      80 </span>                :     }
<a name="81"><span class="lineNum">      81 </span><span class="lineCov">              1 : }</span></a>
<span class="lineNum">      82 </span>                : 
<span class="lineNum">      83 </span><span class="lineCov">              1 : void DataBase::copy_antivirals()</span>
<span class="lineNum">      84 </span>                : {
<span class="lineNum">      85 </span><span class="lineCov">              1 :     CAutonomousIterator&lt;Antivirals&gt; it(antivirals);</span>
<span class="lineNum">      86 </span><span class="lineCov">             17 :     while (!it.end())</span>
<span class="lineNum">      87 </span>                :     {
<span class="lineNum">      88 </span><span class="lineCov">             15 :         insert_into(validated_antivirals, *it);</span>
<span class="lineNum">      89 </span><span class="lineCov">             15 :         ++it;</span>
<span class="lineNum">      90 </span>                :     }
<a name="91"><span class="lineNum">      91 </span><span class="lineCov">              1 : }</span></a>
<span class="lineNum">      92 </span>                : 
<span class="lineNum">      93 </span><span class="lineCov">              1 : void DataBase::ignore_antivirals(const Names&amp; names)</span>
<span class="lineNum">      94 </span>                : {
<span class="lineNum">      95 </span><span class="lineCov">              1 :     std::string name;</span>
<span class="lineNum">      96 </span>                : 
<span class="lineNum">      97 </span><span class="lineCov">              1 :     CAutonomousIterator&lt;Names&gt; it(names);</span>
<span class="lineNum">      98 </span><span class="lineCov">              3 :     while (!it.end())</span>
<span class="lineNum">      99 </span>                :     {
<span class="lineNum">     100 </span><span class="lineCov">              1 :         Antivirals::iterator it2 = validated_antivirals.begin();</span>
<span class="lineNum">     101 </span>                : 
<span class="lineNum">     102 </span><span class="lineCov">             17 :         while (it2 != validated_antivirals.end())</span>
<span class="lineNum">     103 </span>                :         {
<span class="lineNum">     104 </span><span class="lineCov">             15 :             it2-&gt;get_attrib(&quot;name&quot;, name);</span>
<span class="lineNum">     105 </span><span class="lineCov">             30 :             if (name == *it)</span>
<span class="lineNum">     106 </span>                :             {
<span class="lineNum">     107 </span><span class="lineNoCov">              0 :                 it2 = validated_antivirals.erase(it2);</span>
<span class="lineNum">     108 </span>                :             }
<span class="lineNum">     109 </span><span class="lineCov">             15 :             ++it2;</span>
<span class="lineNum">     110 </span>                :         }
<a name="111"><span class="lineNum">     111 </span><span class="lineCov">              1 :         ++it;</span></a>
<span class="lineNum">     112 </span><span class="lineCov">              1 :     }</span>
<span class="lineNum">     113 </span><span class="lineCov">              4 : }</span>
<span class="lineNum">     114 </span>                : 
<span class="lineNum">     115 </span>                : 
<span class="lineNum">     116 </span>                : 
<span class="lineNum">     117 </span>                : 
</pre>
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